tcR: an R package for T cell receptor repertoire advanced data analysis.
BMC Bioinformatics
; 16: 175, 2015 May 28.
Article
em En
| MEDLINE
| ID: mdl-26017500
ABSTRACT
BACKGROUND:
The Immunoglobulins (IG) and the T cell receptors (TR) play the key role in antigen recognition during the adaptive immune response. Recent progress in next-generation sequencing technologies has provided an opportunity for the deep T cell receptor repertoire profiling. However, a specialised software is required for the rational analysis of massive data generated by next-generation sequencing.RESULTS:
Here we introduce tcR, a new R package, representing a platform for the advanced analysis of T cell receptor repertoires, which includes diversity measures, shared T cell receptor sequences identification, gene usage statistics computation and other widely used methods. The tool has proven its utility in recent research studies.CONCLUSIONS:
tcR is an R package for the advanced analysis of T cell receptor repertoires after primary TR sequences extraction from raw sequencing reads. The stable version can be directly installed from The Comprehensive R Archive Network ( http//cran.r-project.org/mirrors.html ). The source code and development version are available at tcR GitHub ( http//imminfo.github.io/tcr/ ) along with the full documentation and typical usage examples.
Texto completo:
1
Coleções:
01-internacional
Base de dados:
MEDLINE
Assunto principal:
Software
/
Imunoglobulinas
/
Receptores de Antígenos de Linfócitos T
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Análise de Sequência de DNA
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Sequenciamento de Nucleotídeos em Larga Escala
Limite:
Humans
Idioma:
En
Ano de publicação:
2015
Tipo de documento:
Article